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Protein

ATP-dependent RNA helicase DBP6

Gene

DBP6

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

ATP-binding RNA helicase involved in the biogenesis of 60S ribosomal subunits and is required for the normal formation of 25S and 5.8S rRNAs.4 Publications

Catalytic activityi

ATP + H2O = ADP + phosphate.

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi234 – 241ATPPROSITE-ProRule annotation8

GO - Molecular functioni

  • ATP binding Source: UniProtKB-KW
  • ATP-dependent RNA helicase activity Source: SGD
  • RNA binding Source: UniProtKB-KW

GO - Biological processi

  • maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) Source: SGD
  • maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) Source: SGD
  • RNA secondary structure unwinding Source: GO_Central
Complete GO annotation...

Keywords - Molecular functioni

Helicase, Hydrolase

Keywords - Biological processi

Ribosome biogenesis, rRNA processing

Keywords - Ligandi

ATP-binding, Nucleotide-binding, RNA-binding

Enzyme and pathway databases

BioCyciYEAST:G3O-33348-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
ATP-dependent RNA helicase DBP6 (EC:3.6.4.13)
Alternative name(s):
DEAD box protein 6
Gene namesi
Name:DBP6
Ordered Locus Names:YNR038W
ORF Names:N3302
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome XIV

Organism-specific databases

EuPathDBiFungiDB:YNR038W.
SGDiS000005321. DBP6.

Subcellular locationi

GO - Cellular componenti

  • nucleolus Source: SGD
  • preribosome, large subunit precursor Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000550361 – 629ATP-dependent RNA helicase DBP6Add BLAST629

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei73PhosphoserineCombined sources1
Modified residuei77PhosphoserineCombined sources1
Modified residuei78PhosphoserineCombined sources1

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiP53734.
PRIDEiP53734.

PTM databases

iPTMnetiP53734.

Interactioni

Subunit structurei

Associated with pre-ribosomal particles. Interacts with DBP9 and RSA3. Together with NOP8, URB1, URB2 and RSA3, forms an RNA-independent complex, which is required during early maturation of nascent 60S ribosomal subunits.3 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
RSA3Q059423EBI-5625,EBI-33602
URB1P342414EBI-5625,EBI-26595
URB2P471084EBI-5625,EBI-25492

Protein-protein interaction databases

BioGridi35864. 31 interactors.
IntActiP53734. 43 interactors.
MINTiMINT-2731978.

Structurei

3D structure databases

ProteinModelPortaliP53734.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini221 – 401Helicase ATP-bindingPROSITE-ProRule annotationAdd BLAST181
Domaini437 – 603Helicase C-terminalPROSITE-ProRule annotationAdd BLAST167

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi197 – 205Q motif9
Motifi341 – 344DEAD box4

Domaini

The Q motif is unique to and characteristic of the DEAD box family of RNA helicases and controls ATP binding and hydrolysis.

Sequence similaritiesi

Contains 1 helicase ATP-binding domain.PROSITE-ProRule annotation
Contains 1 helicase C-terminal domain.PROSITE-ProRule annotation

Phylogenomic databases

GeneTreeiENSGT00550000075141.
HOGENOMiHOG000203294.
InParanoidiP53734.
KOiK14807.
OMAiPNSSREY.
OrthoDBiEOG092C1FFB.

Family and domain databases

Gene3Di3.40.50.300. 2 hits.
InterProiIPR011545. DEAD/DEAH_box_helicase_dom.
IPR014001. Helicase_ATP-bd.
IPR001650. Helicase_C.
IPR027417. P-loop_NTPase.
IPR000629. RNA-helicase_DEAD-box_CS.
[Graphical view]
PfamiPF00270. DEAD. 1 hit.
PF00271. Helicase_C. 1 hit.
[Graphical view]
SMARTiSM00487. DEXDc. 1 hit.
SM00490. HELICc. 1 hit.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 1 hit.
PROSITEiPS00039. DEAD_ATP_HELICASE. 1 hit.
PS51192. HELICASE_ATP_BIND_1. 1 hit.
PS51194. HELICASE_CTER. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P53734-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MFASRFDPSQ LTAPAASAPE GIVGTTPPAI VPLKRQATES DNEEYGSHQD
60 70 80 90 100
SDESSNSSSE EDEDRMQVDY GASEEDSSEV EEEESKPSTH STVLSRFKQT
110 120 130 140 150
VSLQERLGAS DIAESKEDEG IEDEAASTHQ LKQIPQPEFV KNPMNLNTNS
160 170 180 190 200
LQFKSTGWLN TEKIYYDNSL IKPFSDYANE LEAKLLQNIC KNFSTNTFPI
210 220 230 240 250
QSIILDSILP VLNFTLNVSK RNFTRRIGDI LVNAATGSGK TLAYSIPIVQ
260 270 280 290 300
TLFKRQINRL RCIIIVPTKL LINQVYTTLT KLTQGTSLIV SIAKLENSLK
310 320 330 340 350
DEHKKLSNLE PDILITTPGR LVDHLNMKSI NLKNLKFLII DEADRLLNQS
360 370 380 390 400
FQGWCPKLMS HLKTDKLDTL PGNVIKMIFS ATLTTNTEKL NGLNLYKPKL
410 420 430 440 450
FLKQTDKLYQ LPNKLNEFNI NIPTAKSVYK PLILLYSICQ FMAHSPIAAK
460 470 480 490 500
ILIFVKSNES SIRLSKLLQL ICESRSQSSV LKNLQNLAVS INSVNSNNSK
510 520 530 540 550
AENKKIVANF SHHSESAGIT ILITTDIMSR GIDINDITQV INYDPPMSSQ
560 570 580 590 600
QYVHRVGRTA RANELGSAYN LLVGRGERTF FDDLNKDLDR DGKSVQPLEL
610 620
DFTLLESDSE LYTSSLESLK NYHNNTAQA
Length:629
Mass (Da):70,362
Last modified:October 1, 1996 - v1
Checksum:i64A04A2D88F44072
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z71653 Genomic DNA. Translation: CAA96318.1.
BK006947 Genomic DNA. Translation: DAA10580.1.
PIRiS63369.
RefSeqiNP_014436.1. NM_001183215.1.

Genome annotation databases

EnsemblFungiiYNR038W; YNR038W; YNR038W.
GeneIDi855774.
KEGGisce:YNR038W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z71653 Genomic DNA. Translation: CAA96318.1.
BK006947 Genomic DNA. Translation: DAA10580.1.
PIRiS63369.
RefSeqiNP_014436.1. NM_001183215.1.

3D structure databases

ProteinModelPortaliP53734.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi35864. 31 interactors.
IntActiP53734. 43 interactors.
MINTiMINT-2731978.

PTM databases

iPTMnetiP53734.

Proteomic databases

MaxQBiP53734.
PRIDEiP53734.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYNR038W; YNR038W; YNR038W.
GeneIDi855774.
KEGGisce:YNR038W.

Organism-specific databases

EuPathDBiFungiDB:YNR038W.
SGDiS000005321. DBP6.

Phylogenomic databases

GeneTreeiENSGT00550000075141.
HOGENOMiHOG000203294.
InParanoidiP53734.
KOiK14807.
OMAiPNSSREY.
OrthoDBiEOG092C1FFB.

Enzyme and pathway databases

BioCyciYEAST:G3O-33348-MONOMER.

Miscellaneous databases

PROiP53734.

Family and domain databases

Gene3Di3.40.50.300. 2 hits.
InterProiIPR011545. DEAD/DEAH_box_helicase_dom.
IPR014001. Helicase_ATP-bd.
IPR001650. Helicase_C.
IPR027417. P-loop_NTPase.
IPR000629. RNA-helicase_DEAD-box_CS.
[Graphical view]
PfamiPF00270. DEAD. 1 hit.
PF00271. Helicase_C. 1 hit.
[Graphical view]
SMARTiSM00487. DEXDc. 1 hit.
SM00490. HELICc. 1 hit.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 1 hit.
PROSITEiPS00039. DEAD_ATP_HELICASE. 1 hit.
PS51192. HELICASE_ATP_BIND_1. 1 hit.
PS51194. HELICASE_CTER. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiDBP6_YEAST
AccessioniPrimary (citable) accession number: P53734
Secondary accession number(s): D6W1L4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1996
Last sequence update: October 1, 1996
Last modified: November 2, 2016
This is version 147 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

Present with 12700 molecules/cell in log phase SD medium.1 Publication

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  3. Yeast chromosome XIV
    Yeast (Saccharomyces cerevisiae) chromosome XIV: entries and gene names

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.